vv/vvToolProfile.cxx

   1 /*=========================================================================
   2   Program:   vv                     http://www.creatis.insa-lyon.fr/rio/vv
   3
   4   Authors belong to:
   5   - University of LYON              http://www.universite-lyon.fr/
   6   - Léon Bérard cancer center       http://www.centreleonberard.fr
   7   - CREATIS CNRS laboratory         http://www.creatis.insa-lyon.fr
   8
   9   This software is distributed WITHOUT ANY WARRANTY; without even
  10   the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
  11   PURPOSE.  See the copyright notices for more information.
  12
  13   It is distributed under dual licence
  14
  15   - BSD        See included LICENSE.txt file
  16   - CeCILL-B   http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
  17   ===========================================================================**/
  18
  19 #include <QFileDialog>
  20 #include <QShortcut>
  21
  22 #include <algorithm>
  23
  24 // vv
  25 #include "vvToolProfile.h"
  26 #include "vvProgressDialog.h"
  27 #include "vvSlicerManager.h"
  28 #include "vvSlicer.h"
  29 #include "vvToolInputSelectorWidget.h"
  30
  31 // vtk
  32 #include <vtkAxis.h>
  33 #include <vtkImageActor.h>
  34 #include <vtkCamera.h>
  35 #include <vtkImageClip.h>
  36 #include <vtkRenderWindow.h>
  37 #include <vtkChartXY.h>
  38 #include <vtkPlot.h>
  39 #include <vtkRendererCollection.h>
  40 #include <vtkRenderer.h>
  41
  42 #include <vtkLine.h>
  43 #include <vtkCellArray.h>
  44 #include <vtkCellData.h>
  45 #include <vtkPolyDataMapper.h>
  46 #include <vtkProperty.h>
  47 #include <vtkBox.h>
  48 #include <vtkInformation.h>
  49
  50 #ifdef Q_OS_OSX
  51 # include "vvOSXHelper.h"
  52 #endif
  53
  54 //------------------------------------------------------------------------------
  55 // Create the tool and automagically (I like this word) insert it in
  56 // the main window menu.
  57 ADD_TOOL(vvToolProfile);
  58 //------------------------------------------------------------------------------
  59
  60
  61 //------------------------------------------------------------------------------
  62 void vvToolProfile::Initialize()
  63 {
  64   SetToolName("Profile");
  65   SetToolMenuName("Intensity Profile");
  66   SetToolIconFilename(":/common/icons/profile.png");
  67   SetToolTip("Display the intensity profile between 2 points of the image.");
  68   SetToolExperimental(false);
  69 }
  70 //------------------------------------------------------------------------------
  71
  72
  73 //------------------------------------------------------------------------------
  74 vvToolProfile::vvToolProfile(vvMainWindowBase * parent, Qt::WindowFlags f)
  75   :vvToolWidgetBase(parent,f),
  76    vvToolBase<vvToolProfile>(parent),
  77    Ui::vvToolProfile()
  78 {
  79   // GUI Initialization
  80   Ui_vvToolProfile::setupUi(mToolWidget);
  81
  82   QShortcut *shortcutPoint1 = new QShortcut(QKeySequence("Ctrl+1"), parent);
  83   shortcutPoint1->setContext(Qt::ApplicationShortcut);
  84   QObject::connect(shortcutPoint1, SIGNAL(activated()), this, SLOT(selectPoint1()));
  85   QShortcut *shortcutPoint2 = new QShortcut(QKeySequence("Ctrl+2"), parent);
  86   shortcutPoint2->setContext(Qt::ApplicationShortcut);
  87   QObject::connect(shortcutPoint2, SIGNAL(activated()), this, SLOT(selectPoint2()));
  88
  89   // Connect signals & slots
  90   connect(mSelectPoint1Button, SIGNAL(clicked()), this, SLOT(selectPoint1()));
  91   connect(mSelectPoint2Button, SIGNAL(clicked()), this, SLOT(selectPoint2()));
  92   connect(mCancelPointsButton, SIGNAL(clicked()), this, SLOT(cancelPoints()));
  93   connect(mSaveProfileButton, SIGNAL(clicked()), this, SLOT(SaveAs()));
  94
  95   // Initialize some widget
  96   ProfileWidget->hide();
  97   mPoint1 = NULL;
  98   mPoint2 = NULL;
  99
 100   mPoint1Selected = false;
 101   mPoint2Selected = false;
 102
 103   mView = vtkSmartPointer<vtkContextView>::New();
 104   vtkSmartPointer<vtkChartXY> chart = vtkSmartPointer<vtkChartXY>::New();
 105   chart->SetAutoSize(false);
 106   chart->SetRenderEmpty(true);
 107   mView->GetScene()->AddItem(chart);
 108   this->ProfileWidget->GetRenderWindow()->GetRenderers()->RemoveAllItems();
 109   this->ProfileWidget->GetRenderWindow()->AddRenderer(mView->GetRenderer());
 110   ProfileWidget->show();
 111
 112 #ifdef Q_OS_OSX
 113   disableGLHiDPI(ProfileWidget->winId());
 114 #endif
 115
 116   // Main filter
 117   mFilter = clitk::ProfileImageGenericFilter::New();
 118
 119   // Set how many inputs are needed for this tool
 120   AddInputSelector("Select one image", mFilter);
 121 }
 122 //------------------------------------------------------------------------------
 123
 124
 125 //------------------------------------------------------------------------------
 126 vvToolProfile::~vvToolProfile()
 127 {
 128   delete [] mPoint1;
 129   delete [] mPoint2;
 130 }
 131 //------------------------------------------------------------------------------
 132
 133
 134 //------------------------------------------------------------------------------
 135 void vvToolProfile::selectPoint1()
 136 {
 137   QString position = "";
 138
 139   if(mCurrentSlicerManager) {
 140     if (mPoint1Selected) {
 141       ProfileWidget->hide();
 142       vtkSmartPointer<vtkChartXY> chart = vtkSmartPointer<vtkChartXY>::New();
 143       chart->SetAutoSize(false);
 144       chart->SetRenderEmpty(true);
 145       mView->GetScene()->ClearItems();
 146       mView->GetScene()->AddItem(chart);
 147       this->ProfileWidget->GetRenderWindow()->GetRenderers()->RemoveAllItems();
 148       this->ProfileWidget->GetRenderWindow()->AddRenderer(mView->GetRenderer());
 149       ProfileWidget->show();
 150       mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P1", mPoint1[3]);
 151     }
 152
 153     mPoint1Selected = false;
 154
 155     if(mCurrentSlicerManager->GetSelectedSlicer() != -1) {
 156       double *pos;
 157       pos = new double [4];
 158       pos[0] = pos[1] = pos[2] = pos[3] = 0;
 159
 160       int i(0);
 161       while (i<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() && i<3) {
 162         pos[i] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetCursorPosition()[i];
 163         ++i;
 164       }
 165       double posTransformed[3];
 166       mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetConcatenatedTransform()->TransformPoint(pos, posTransformed);
 167       i = 0;
 168       while (i<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() && i<3) {
 169         pos[i] = posTransformed[i];
 170         mPoint1[i] = round((pos[i] - mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[i])/mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[i]);
 171         pos[i] = mPoint1[i]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[i] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[i]; //Ensure to be at the center of the voxel
 172         position += QString::number(mPoint1[i],'f',0) + " ";
 173         ++i;
 174       }
 175       if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() == 4) {
 176         pos[3] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetTSlice();
 177         mPoint1[3] = pos[3];
 178         position += QString::number(mPoint1[3],'f',0) + " ";
 179       }
 180       mPoint1Selected = true;
 181       mCurrentSlicerManager->AddLandmarkProfile(pos[0], pos[1], pos[2], pos[3]);
 182       mCurrentSlicerManager->GetLandmarks()->GetLabels()->SetNumberOfValues(mCurrentSlicerManager->GetLandmarks()->GetLabels()->GetNumberOfValues()-1);
 183       mCurrentSlicerManager->GetLandmarks()->GetLabels()->Modified();
 184       mCurrentSlicerManager->GetLandmarks()->GetLabels()->InsertNextValue("P1");
 185     }
 186   }
 187   mPosPoint1Label->setText(position);
 188   isPointsSelected();
 189   mCurrentSlicerManager->Render();
 190 }
 191 //------------------------------------------------------------------------------
 192
 193
 194 //------------------------------------------------------------------------------
 195 void vvToolProfile::selectPoint2()
 196 {
 197   QString position = "";
 198
 199   if(mCurrentSlicerManager) {
 200     if (mPoint2Selected) {
 201       ProfileWidget->hide();
 202       vtkSmartPointer<vtkChartXY> chart = vtkSmartPointer<vtkChartXY>::New();
 203       chart->SetAutoSize(false);
 204       chart->SetRenderEmpty(true);
 205       mView->GetScene()->ClearItems();
 206       mView->GetScene()->AddItem(chart);
 207       this->ProfileWidget->GetRenderWindow()->GetRenderers()->RemoveAllItems();
 208       this->ProfileWidget->GetRenderWindow()->AddRenderer(mView->GetRenderer());
 209       ProfileWidget->show();
 210       mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P2", mPoint2[3]);
 211     }
 212
 213     mPoint2Selected = false;
 214
 215     if(mCurrentSlicerManager->GetSelectedSlicer() != -1) {
 216       double *pos;
 217       pos = new double [4];
 218       pos[0] = pos[1] = pos[2] = pos[3] = 0;;
 219
 220       int i(0);
 221       while (i<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() && i<3) {
 222         pos[i] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetCursorPosition()[i];
 223         ++i;
 224       }
 225       double posTransformed[3];
 226       mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetConcatenatedTransform()->TransformPoint(pos, posTransformed);
 227       i = 0;
 228       while (i<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() && i<3) {
 229         pos[i] = posTransformed[i];
 230         mPoint2[i] = round((pos[i] - mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[i])/mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[i]);
 231         pos[i] = mPoint2[i]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[i] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[i]; //Ensure to be at the center of the voxel
 232         position += QString::number(mPoint2[i],'f',0) + " ";
 233         ++i;
 234       }
 235       if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() == 4) {
 236         pos[3] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetTSlice();
 237         mPoint2[3] = pos[3];
 238         position += QString::number(mPoint2[3],'f',0) + " ";
 239       }
 240       mPoint2Selected = true;
 241       mCurrentSlicerManager->AddLandmarkProfile(pos[0], pos[1], pos[2], pos[3]);
 242       mCurrentSlicerManager->GetLandmarks()->GetLabels()->SetNumberOfValues(mCurrentSlicerManager->GetLandmarks()->GetLabels()->GetNumberOfValues()-1);
 243       mCurrentSlicerManager->GetLandmarks()->GetLabels()->Modified();
 244       mCurrentSlicerManager->GetLandmarks()->GetLabels()->InsertNextValue("P2");
 245     }
 246   }
 247   mPosPoint2Label->setText(position);
 248   isPointsSelected();
 249   mCurrentSlicerManager->Render();
 250 }
 251 //------------------------------------------------------------------------------
 252
 253 //------------------------------------------------------------------------------
 254 bool vvToolProfile::isPointsSelected()
 255 {
 256   if (mPoint1Selected && mPoint2Selected) {
 257       mSaveProfileButton->setEnabled(true);
 258       computeProfile();
 259       SetPoints();
 260       for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
 261         DisplayLine(i);
 262         connect(mCurrentSlicerManager->GetSlicer(i), SIGNAL(UpdateDisplayExtentBegin(int)), this, SLOT(DeleteLine(int)));
 263         connect(mCurrentSlicerManager->GetSlicer(i), SIGNAL(UpdateDisplayExtentEnd(int)), this, SLOT(DisplayLine(int)));
 264       }
 265       mCurrentSlicerManager->Render();
 266   }
 267   else {
 268       mSaveProfileButton->setEnabled(false);
 269       for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
 270         disconnect(mCurrentSlicerManager->GetSlicer(i), SIGNAL(UpdateDisplayExtentBegin(int)), this, SLOT(DeleteLine(int)));
 271         disconnect(mCurrentSlicerManager->GetSlicer(i), SIGNAL(UpdateDisplayExtentEnd(int)), this, SLOT(DisplayLine(int)));
 272         mCurrentSlicerManager->GetSlicer(i)->GetRenderer()->RemoveActor(mLineActors[i]);
 273       }
 274
 275   }
 276   return (mPoint1Selected && mPoint2Selected);
 277 }
 278 //------------------------------------------------------------------------------
 279
 280
 281 //------------------------------------------------------------------------------
 282 void vvToolProfile::computeProfile()
 283 {
 284     if (!mCurrentSlicerManager) close();
 285     QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
 286     GetArgsInfoFromGUI();
 287     ProfileWidget->hide();
 288
 289     // Main filter
 290     mFilter->SetInputVVImage(mCurrentImage);
 291     mFilter->SetArgsInfo(mArgsInfo);
 292     mFilter->Update();
 293
 294     //Creation of the XY chart
 295     vtkSmartPointer<vtkTable> table = vtkSmartPointer<vtkTable>::New();
 296     vtkSmartPointer<vtkFloatArray> arrX = vtkSmartPointer<vtkFloatArray>::New();
 297     vtkSmartPointer<vtkFloatArray> arrY = vtkSmartPointer<vtkFloatArray>::New();
 298     arrX = mFilter->GetArrayX();
 299     arrY = mFilter->GetArrayY();
 300     arrX->SetName("Distance (mm)");
 301     arrY->SetName("Intensity");
 302
 303     table->AddColumn(arrX);
 304     table->AddColumn(arrY);
 305
 306     mView->GetRenderer()->SetBackground(1.0, 1.0, 1.0);
 307
 308     vtkSmartPointer<vtkChartXY> chart = vtkSmartPointer<vtkChartXY>::New();
 309     chart->SetAutoSize(true);
 310     mView->GetScene()->ClearItems();
 311     mView->GetScene()->AddItem(chart);
 312     vtkPlot *line = chart->AddPlot(vtkChart::LINE);
 313 #if VTK_MAJOR_VERSION <= 5
 314     line->SetInput(table, 0, 1);
 315 #else
 316     line->SetInputData(table, 0, 1);
 317 #endif
 318     line->SetColor(0, 255, 0, 255);
 319     line->SetWidth(1.0);
 320     chart->GetAxis(vtkAxis::LEFT)->SetTitle("Intensity");
 321     chart->GetAxis(vtkAxis::BOTTOM)->SetTitle("Distance (mm)");
 322
 323     this->ProfileWidget->GetRenderWindow()->GetRenderers()->RemoveAllItems();
 324     this->ProfileWidget->GetRenderWindow()->AddRenderer(mView->GetRenderer());
 325     ProfileWidget->show();
 326
 327     QApplication::restoreOverrideCursor();
 328 }
 329 //------------------------------------------------------------------------------
 330
 331
 332 //------------------------------------------------------------------------------
 333 void vvToolProfile::cancelPoints()
 334 {
 335   if (mPoint1Selected)
 336     mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P1", mPoint1[3]);
 337   if (mPoint2Selected)
 338     mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P2", mPoint2[3]);
 339   ProfileWidget->hide();
 340   vtkSmartPointer<vtkChartXY> chart = vtkSmartPointer<vtkChartXY>::New();
 341   chart->SetAutoSize(false);
 342   chart->SetRenderEmpty(true);
 343   mView->GetScene()->ClearItems();
 344   mView->GetScene()->AddItem(chart);
 345   this->ProfileWidget->GetRenderWindow()->GetRenderers()->RemoveAllItems();
 346   this->ProfileWidget->GetRenderWindow()->AddRenderer(mView->GetRenderer());
 347   ProfileWidget->show();
 348
 349   QString position = "";
 350   mPosPoint1Label->setText(position);
 351   mPosPoint2Label->setText(position);
 352   mPoint1Selected = false;
 353   mPoint2Selected = false;
 354   mSaveProfileButton->setEnabled(false);
 355   isPointsSelected();
 356   mCurrentSlicerManager->Render();
 357 }
 358 //------------------------------------------------------------------------------
 359
 360
 361 //------------------------------------------------------------------------------
 362 void vvToolProfile::RemoveVTKObjects()
 363 {
 364   if (mCurrentSlicerManager)
 365   {
 366     for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
 367       mCurrentSlicerManager->GetSlicer(i)->GetRenderer()->RemoveActor(mLineActors[i]);
 368     }
 369
 370     if (mPoint1Selected)
 371       mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P1", mPoint1[3]);
 372     if (mPoint2Selected)
 373       mCurrentSlicerManager->GetLandmarks()->RemoveLandmarkWithLabel("P2", mPoint2[3]);
 374
 375     mCurrentSlicerManager->Render();
 376   }
 377 }
 378 //------------------------------------------------------------------------------
 379
 380
 381 //------------------------------------------------------------------------------
 382 bool vvToolProfile::close()
 383 {
 384   //RemoveVTKObjects();
 385
 386   connect(mCurrentSlicerManager, SIGNAL(callAddLandmark(float,float,float,float)), mCurrentSlicerManager, SLOT(AddLandmark(float,float,float,float)));
 387   return vvToolWidgetBase::close();
 388 }
 389 //------------------------------------------------------------------------------
 390
 391
 392 //------------------------------------------------------------------------------
 393 void vvToolProfile::closeEvent(QCloseEvent *event)
 394 {
 395   RemoveVTKObjects();
 396   event->accept();
 397 }
 398 //------------------------------------------------------------------------------
 399
 400
 401 //------------------------------------------------------------------------------
 402 void vvToolProfile::reject()
 403 {
 404   // DD("vvToolProfile::reject");
 405   RemoveVTKObjects();
 406   return vvToolWidgetBase::reject();
 407 }
 408 //------------------------------------------------------------------------------
 409
 410
 411 //------------------------------------------------------------------------------
 412 void vvToolProfile::InputIsSelected(vvSlicerManager * m)
 413 {
 414   mCurrentSlicerManager = m;
 415
 416   mPoint1 = new double[4];
 417   mPoint1[0] = mPoint1[1] = mPoint1[2] = mPoint1[3] = 0;
 418   mPoint2 = new double[4];
 419   mPoint2[0] = mPoint2[1] = mPoint2[2] = mPoint2[3] = 0;
 420
 421   mSaveProfileButton->setEnabled(false);
 422   mTextFileName = "Profile.txt";
 423   InitializeLine();
 424
 425   disconnect(mCurrentSlicerManager, SIGNAL(callAddLandmark(float,float,float,float)), mCurrentSlicerManager, SLOT(AddLandmark(float,float,float,float)));
 426 }
 427 //------------------------------------------------------------------------------
 428
 429
 430 //------------------------------------------------------------------------------
 431 void vvToolProfile::GetArgsInfoFromGUI()
 432 {
 433
 434   /* //KEEP THIS FOR READING GGO FROM FILE
 435      int argc=1;
 436      std::string a = "toto";
 437      char * const* argv = new char*;
 438      //a.c_str();
 439      struct cmdline_parser_params p;
 440      p.check_required = 0;
 441      int good = cmdline_parser_ext(argc, argv, &args_info, &p);
 442      DD(good);
 443   */
 444   cmdline_parser_clitkProfileImage_init(&mArgsInfo); // Initialisation to default
 445
 446   mArgsInfo.verbose_flag = false;
 447
 448   mArgsInfo.point1_arg = mPoint1;
 449   mArgsInfo.point2_arg = mPoint2;
 450   mArgsInfo.point1_given = mCurrentSlicerManager->GetImage()->GetNumberOfDimensions();
 451   mArgsInfo.point2_given = mCurrentSlicerManager->GetImage()->GetNumberOfDimensions();
 452
 453   // Required (even if not used)
 454   mArgsInfo.input_given = 0;
 455   mArgsInfo.output_given = 0;
 456
 457   mArgsInfo.input_arg = new char;
 458   mArgsInfo.output_arg = new char;
 459
 460
 461 }
 462 //------------------------------------------------------------------------------
 463
 464
 465 //------------------------------------------------------------------------------
 466 void vvToolProfile::apply()
 467 {
 468   close();
 469 }
 470 //------------------------------------------------------------------------------
 471
 472
 473 //------------------------------------------------------------------------------
 474 void vvToolProfile::SaveAs()
 475 {
 476   QStringList OutputListeFormat;
 477   OutputListeFormat.clear();
 478   OutputListeFormat.push_back(".txt");
 479
 480   QString Extensions = "AllFiles(*.*)";
 481   for (int i = 0; i < OutputListeFormat.count(); i++) {
 482     Extensions += ";;Text File ( *";
 483     Extensions += OutputListeFormat[i];
 484     Extensions += ")";
 485   }
 486   QString fileName = QFileDialog::getSaveFileName(this, tr("Save As"), mTextFileName.c_str(), Extensions);
 487   if (!fileName.isEmpty()) {
 488     std::string fileformat = itksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
 489     QString fileQFormat = fileformat.c_str();
 490     if (OutputListeFormat.contains(fileformat.c_str()) || fileQFormat.isEmpty()) {
 491         QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
 492         std::string action = "Saving";
 493         vvProgressDialog progress("Saving "+fileName.toStdString());
 494         qApp->processEvents();
 495
 496         if (!mCurrentSlicerManager || !isPointsSelected()) {
 497             close();
 498             return;
 499         }
 500
 501         // Output
 502         mTextFileName = fileName.toStdString();
 503         if (fileQFormat.isEmpty())
 504             mTextFileName += ".txt";
 505         ofstream fileOpen(mTextFileName.c_str(), std::ofstream::trunc);
 506
 507         if(!fileOpen) {
 508             cerr << "Error during saving" << endl;
 509             QApplication::restoreOverrideCursor();
 510             close();
 511             return;
 512         }
 513
 514         vtkSmartPointer<vtkFloatArray> arrX = vtkSmartPointer<vtkFloatArray>::New();
 515         vtkSmartPointer<vtkFloatArray> arrY = vtkSmartPointer<vtkFloatArray>::New();
 516         vtkSmartPointer<vtkFloatArray> coords = vtkSmartPointer<vtkFloatArray>::New();
 517         arrX = mFilter->GetArrayX();
 518         arrY = mFilter->GetArrayY();
 519         coords = mFilter->GetCoord();
 520         double *tuple;
 521         tuple = new double[mCurrentSlicerManager->GetImage()->GetNumberOfDimensions()];
 522         int i(0);
 523         fileOpen << "The Bresenham algorithm is used to travel along the line. Values represent the center of each crossed voxel (in voxel and mm)" << endl;
 524         fileOpen << "Id" << "\t" << "Value" << "\t" ;
 525         fileOpen << "x(vox)" << "\t" << "y(vox)" << "\t";
 526         if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() >=3)
 527             fileOpen << "z(vox)" << "\t";
 528         if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() >=4)
 529             fileOpen << "t" << "\t";
 530         fileOpen << "x(mm)" << "\t" << "y(mm)" << "\t";
 531         if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() >=3)
 532             fileOpen << "z(mm)" << "\t";
 533         if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() >=4)
 534             fileOpen << "t" << "\t";
 535         fileOpen << endl;
 536
 537         while (i<arrX->GetNumberOfTuples()) {
 538             fileOpen << i << "\t" << arrY->GetTuple(i)[0] << "\t" ;
 539
 540             coords->GetTuple(i, tuple);
 541             for (int j=0; j<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() ; ++j) {
 542                 fileOpen << tuple[j] << "\t" ;
 543             }
 544             int j(0);
 545             while (j<mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() && j<3) {
 546                 fileOpen << tuple[j]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[j]+mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[j] << "\t" ;
 547                 ++j;
 548             }
 549             if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() == 4) {
 550                 fileOpen << tuple[3] << "\t" ;
 551             }
 552             fileOpen << endl;
 553             ++i;
 554         }
 555
 556         delete [] tuple;
 557
 558         fileOpen.close();
 559         QApplication::restoreOverrideCursor();
 560     } else {
 561       QString error = fileformat.c_str();
 562       error += " format unknown !!!\n";
 563       QMessageBox::information(this,tr("Saving Problem"),error);
 564       SaveAs();
 565     }
 566   }
 567 }
 568 //------------------------------------------------------------------------------
 569
 570
 571 //------------------------------------------------------------------------------
 572 void vvToolProfile::DeleteLine(int slicer)
 573 {
 574   if (!mPoint1Selected && !mPoint2Selected)
 575     return;
 576
 577   if(mCurrentSlicerManager) {
 578       if(mCurrentSlicerManager->GetSelectedSlicer() != -1) {
 579           mCurrentSlicerManager->GetSlicer(slicer)->GetRenderer()->RemoveActor(mLineActors[slicer]);
 580       }
 581    }
 582 }
 583 //------------------------------------------------------------------------------
 584
 585
 586 //------------------------------------------------------------------------------
 587 void vvToolProfile::DisplayLine(int slicer)
 588 {
 589   if (!mPoint1Selected && !mPoint2Selected)
 590     return;
 591
 592   if(mCurrentSlicerManager) {
 593       if(mCurrentSlicerManager->GetSelectedSlicer() != -1) {
 594           double currentSlice = (mCurrentSlicerManager->GetSlicer(slicer)->GetSlice()*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetInput()->GetSpacing()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetInput()->GetOrigin()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()] - mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()] )/ mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()];
 595           if (std::min(mPoint1[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()],mPoint2[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()]) <= currentSlice && std::max(mPoint1[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()],mPoint2[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()]) >= currentSlice) {
 596             vtkSmartPointer<vtkBox> clippingBox = vtkSmartPointer<vtkBox>::New();
 597             double extent[6];
 598             for (int j=0; j<6; ++j) {
 599                 extent[j] = mCurrentSlicerManager->GetSlicer(slicer)->GetExtent()[j];
 600             }
 601             extent[2*mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()] = mCurrentSlicerManager->GetSlicer(slicer)->GetImageActor()->GetBounds()[ mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()*2 ]-fabs(mCurrentSlicerManager->GetSlicer(slicer)->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()]);
 602             extent[2*mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()+1] = mCurrentSlicerManager->GetSlicer(slicer)->GetImageActor()->GetBounds()[ mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()*2+1 ]+fabs(mCurrentSlicerManager->GetSlicer(slicer)->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[mCurrentSlicerManager->GetSlicer(slicer)->GetOrientation()]);
 603             clippingBox->SetBounds(extent);
 604
 605             vtkSmartPointer<vtkClipPolyData> clipper = vtkSmartPointer<vtkClipPolyData>::New();
 606             clipper->SetClipFunction(clippingBox);
 607 #if VTK_MAJOR_VERSION <= 5
 608             clipper->SetInput(mLinesPolyData);
 609 #else
 610             mLineTransform = vtkSmartPointer<vtkTransformPolyDataFilter>::New();
 611             mLineTransform->SetInputData(mLinesPolyData);
 612             mLineTransform->SetTransform(mCurrentSlicerManager->GetSlicer(slicer)->GetConcatenatedTransform()->GetInverse());
 613             clipper->SetInputConnection(mLineTransform->GetOutputPort());
 614 #endif
 615             clipper->InsideOutOff();
 616             clipper->Update();
 617             vtkSmartPointer<vtkPolyDataMapper> lineMapper = vtkSmartPointer<vtkPolyDataMapper>::New();
 618 #if VTK_MAJOR_VERSION <= 5
 619             lineMapper->SetInput(clipper->GetOutput());
 620 #else
 621             lineMapper->SetInputData(clipper->GetOutput());
 622 #endif
 623
 624             mLineActors[slicer]->SetMapper(lineMapper);
 625             mLineActors[slicer]->GetProperty()->SetOpacity(0.995);
 626
 627             mCurrentSlicerManager->GetSlicer(slicer)->GetRenderer()->AddActor(mLineActors[slicer]);
 628          }
 629       }
 630   }
 631 }
 632 //------------------------------------------------------------------------------
 633
 634
 635 //------------------------------------------------------------------------------
 636 void vvToolProfile::InitializeLine()
 637 {
 638   if(mCurrentSlicerManager) {
 639
 640       mLinesPolyData = vtkSmartPointer<vtkPolyData>::New();
 641
 642       vtkSmartPointer<vtkPoints> pts = vtkSmartPointer<vtkPoints>::New();
 643       double pos[4];
 644       pos[0] = pos[1] = pos[2] = pos[3] = 0;
 645       pts->InsertNextPoint(pos);
 646       pts->InsertNextPoint(pos);
 647       mLinesPolyData->SetPoints(pts);
 648
 649       vtkSmartPointer<vtkCellArray> lines = vtkSmartPointer<vtkCellArray>::New();
 650       vtkSmartPointer<vtkLine> line = vtkSmartPointer<vtkLine>::New();
 651       line->GetPointIds()->SetId(0, 0); // the second 0 is the index of the 1st point in mLinesPolyData's points (pts)
 652       line->GetPointIds()->SetId(1, 1); // the second 1 is the index of the 2nd point in mLinesPolyData's points (pts)
 653       lines->InsertNextCell(line);
 654       mLinesPolyData->SetLines(lines);
 655
 656       unsigned char red[3] = { 255, 0, 0 };
 657       vtkSmartPointer<vtkUnsignedCharArray> colors = vtkSmartPointer<vtkUnsignedCharArray>::New();
 658       colors->SetNumberOfComponents(3);
 659       colors->InsertNextTupleValue(red);
 660       mLinesPolyData->GetCellData()->SetScalars(colors);
 661
 662       for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
 663         mLineActors.push_back(vtkSmartPointer<vtkActor>::New());
 664       }
 665    }
 666 }
 667 //------------------------------------------------------------------------------
 668
 669
 670 //------------------------------------------------------------------------------
 671 void vvToolProfile::SetPoints()
 672 {
 673   if (!mPoint1Selected && !mPoint2Selected)
 674     return;
 675
 676   if(mCurrentSlicerManager) {
 677       if(mCurrentSlicerManager->GetSelectedSlicer() != -1) {
 678           /*double *pos;
 679           pos = new double [4];
 680           pos[0] = pos[1] = pos[2] = pos[3] = 0;
 681
 682           int i(0);
 683           while (i<3) {
 684             pos[i] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetCursorPosition()[i];
 685             ++i;
 686           }
 687           if (mCurrentSlicerManager->GetImage()->GetNumberOfDimensions() == 4) {
 688             pos[3] = mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetTSlice();
 689           } */
 690
 691           double p0[4], p1[4];
 692           p0[0] = mPoint1[0]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[0] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[0];
 693           p0[1] = mPoint1[1]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[1] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[1];
 694           p0[2] = mPoint1[2]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[2] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[2];
 695           p0[3] = mPoint1[3];
 696
 697           p1[0] = mPoint2[0]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[0] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[0];
 698           p1[1] = mPoint2[1]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[1] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[1];
 699           p1[2] = mPoint2[2]*mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetSpacing()[2] + mCurrentSlicerManager->GetSlicer(mCurrentSlicerManager->GetSelectedSlicer())->GetImage()->GetVTKImages()[mCurrentSlicerManager->GetTSlice()]->GetOrigin()[2];
 700           p1[3] = mPoint2[3];
 701
 702           vtkSmartPointer<vtkPoints> pts = mLinesPolyData->GetPoints();
 703           pts->SetPoint(0,p0);
 704           pts->SetPoint(1,p1);
 705     }
 706   }
 707 }
 708 //------------------------------------------------------------------------------
 709
 710